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Aliases for CLEC4F Gene

Aliases for CLEC4F Gene

  • C-Type Lectin Domain Family 4 Member F 2 3 5
  • C-Type (Calcium Dependent, Carbohydrate-Recognition Domain) Lectin, Superfamily Member 13 2 3
  • CLECSF13 3 4
  • C-Type Lectin Domain Family 4, Member F 2
  • C-Type Lectin Superfamily Member 13 4
  • C-Type Lectin 13 4
  • KCLR 3

External Ids for CLEC4F Gene

Previous HGNC Symbols for CLEC4F Gene

  • CLECSF13

Previous GeneCards Identifiers for CLEC4F Gene

  • GC02M070948
  • GC02M070889
  • GC02M071035

Summaries for CLEC4F Gene

GeneCards Summary for CLEC4F Gene

CLEC4F (C-Type Lectin Domain Family 4 Member F) is a Protein Coding gene. Diseases associated with CLEC4F include Kenny-Caffey Syndrome and Kenny-Caffey Syndrome, Type 1. GO annotations related to this gene include carbohydrate binding and galactose binding. An important paralog of this gene is CD207.

UniProtKB/Swiss-Prot for CLEC4F Gene

  • Receptor with an affinity for galactose and fucose. Could be involved in endocytosis (By similarity).

No data available for Entrez Gene Summary , CIViC summary , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for CLEC4F Gene

Genomics for CLEC4F Gene

Regulatory Elements for CLEC4F Gene

Enhancers for CLEC4F Gene
GeneHancer Identifier Enhancer Score Enhancer Sources Gene-Enhancer Score TSS distance (kb) Number of Genes Away Size (kb) Transcription Factor Binding Sites within enhancer Gene Targets for Enhancer
GH02G069911 2.1 FANTOM5 Ensembl ENCODE dbSUPER 11.5 +908.4 908426 7.4 CREB3L1 MLX AGO1 ZFP64 DMAP1 FEZF1 YY1 SLC30A9 ZNF143 ZNF263 SNRNP27 MXD1 ASPRV1 PCBP1-AS1 GMCL1 CLEC4F CD207 PCBP1 PIR33848
GH02G070827 0.5 Ensembl 37.2 -3.6 -3637 0.4 NRF1 BHLHE40 SPI1 CLEC4F ATP6V1B1-AS1 ADD2 CD207
GH02G070102 1.6 Ensembl ENCODE dbSUPER 10.7 +719.4 719429 2.9 HDGF PKNOX1 ARNT ARID4B DMAP1 YBX1 YY1 ZNF766 ZNF143 ZNF207 CD207 TEX261 CLEC4F MXD1 SNRNP27 PCBP1-AS1 GC02P070112
GH02G070828 0.6 Ensembl 24.5 -4.7 -4737 0.2 SCRT1 PKNOX1 SMARCA4 RNF2 SCRT2 HLF CREB1 CLEC4F ATP6V1B1-AS1 ADD2 CD207
GH02G070766 1.1 ENCODE 11.7 +56.3 56342 1.8 HDGF PKNOX1 ARNT AGO1 ZFP64 ARID4B SIN3A ZNF2 YY1 ZNF143 CLEC4F TEX261 MPHOSPH10 CD207 PCBP1-AS1 FIGLA ADD2 PIR38094
- Elite enhancer and/or Elite enhancer-gene association Download GeneHancer data dump

Enhancers around CLEC4F on UCSC Golden Path with GeneCards custom track

Genomic Location for CLEC4F Gene

Chromosome:
2
Start:
70,808,643 bp from pter
End:
70,823,764 bp from pter
Size:
15,122 bases
Orientation:
Minus strand

Genomic View for CLEC4F Gene

Genes around CLEC4F on UCSC Golden Path with GeneCards custom track

Cytogenetic band:
CLEC4F Gene in genomic location: bands according to Ensembl, locations according to GeneLoc (and/or Entrez Gene and/or Ensembl if different)
Genomic Location for CLEC4F Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for CLEC4F Gene

Proteins for CLEC4F Gene

  • Protein details for CLEC4F Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    Q8N1N0-CLC4F_HUMAN
    Recommended name:
    C-type lectin domain family 4 member F
    Protein Accession:
    Q8N1N0
    Secondary Accessions:
    • A4QPA5

    Protein attributes for CLEC4F Gene

    Size:
    589 amino acids
    Molecular mass:
    65519 Da
    Quaternary structure:
    No Data Available
    SequenceCaution:
    • Sequence=BAC04786.1; Type=Erroneous termination; Positions=540; Note=Translated as Trp.; Evidence={ECO:0000305};

    Alternative splice isoforms for CLEC4F Gene

    UniProtKB/Swiss-Prot:

neXtProt entry for CLEC4F Gene

Post-translational modifications for CLEC4F Gene

  • Glycosylation at Asn79, posLast=113113, Asn207, Asn230, Asn244, Asn312, Asn385, and Asn399
  • Modification sites at PhosphoSitePlus

No data available for DME Specific Peptides for CLEC4F Gene

Domains & Families for CLEC4F Gene

Gene Families for CLEC4F Gene

Protein Domains for CLEC4F Gene

Suggested Antigen Peptide Sequences for CLEC4F Gene

Graphical View of Domain Structure for InterPro Entry

genes like me logo Genes that share domains with CLEC4F: view

No data available for UniProtKB/Swiss-Prot for CLEC4F Gene

Function for CLEC4F Gene

Molecular function for CLEC4F Gene

UniProtKB/Swiss-Prot Function:
Receptor with an affinity for galactose and fucose. Could be involved in endocytosis (By similarity).

Gene Ontology (GO) - Molecular Function for CLEC4F Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0030246 carbohydrate binding IEA --
genes like me logo Genes that share ontologies with CLEC4F: view
genes like me logo Genes that share phenotypes with CLEC4F: view

Animal Models for CLEC4F Gene

MGI Knock Outs for CLEC4F:

Animal Model Products

  • Taconic Biosciences Mouse Models for CLEC4F

CRISPR Products

Inhibitory RNA Products

No data available for Enzyme Numbers (IUBMB) , Human Phenotype Ontology , miRNA , Transcription Factor Targets and HOMER Transcription for CLEC4F Gene

Localization for CLEC4F Gene

Subcellular locations from UniProtKB/Swiss-Prot for CLEC4F Gene

Membrane; Single-pass type II membrane protein.

Subcellular locations from

COMPARTMENTS
Extracellular space Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi Apparatus Nucleus Mitochondrion 0 1 2 3 4 5 Confidence
COMPARTMENTS Subcellular localization image for CLEC4F gene
Compartment Confidence
plasma membrane 3
extracellular 1
mitochondrion 1
nucleus 1
cytosol 1

Gene Ontology (GO) - Cellular Components for CLEC4F Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0016020 membrane IEA --
GO:0016021 integral component of membrane IEA --
genes like me logo Genes that share ontologies with CLEC4F: view

Pathways & Interactions for CLEC4F Gene

SuperPathways for CLEC4F Gene

No Data Available

Interacting Proteins for CLEC4F Gene

Gene Ontology (GO) - Biological Process for CLEC4F Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0006897 endocytosis IEA --
genes like me logo Genes that share ontologies with CLEC4F: view

No data available for Pathways by source and SIGNOR curated interactions for CLEC4F Gene

Drugs & Compounds for CLEC4F Gene

No Compound Related Data Available

Transcripts for CLEC4F Gene

mRNA/cDNA for CLEC4F Gene

(12) REFSEQ mRNAs :
(4) Additional mRNA sequences :
(8) Selected AceView cDNA sequences:
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for CLEC4F Gene

C-type lectin domain family 4, member F:
Representative Sequences:

CRISPR Products

Inhibitory RNA Products

Alternative Splicing Database (ASD) splice patterns (SP) for CLEC4F Gene

No ASD Table

Relevant External Links for CLEC4F Gene

GeneLoc Exon Structure for
CLEC4F
ECgene alternative splicing isoforms for
CLEC4F

Expression for CLEC4F Gene

mRNA expression in normal human tissues from GTEx, Illumina, BioGPS, and CGAP SAGE for CLEC4F Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for CLEC4F Gene

This gene is overexpressed in Spleen (x5.9) and Uterus (x4.7).

Protein differential expression in normal tissues from HIPED for CLEC4F Gene

This gene is overexpressed in Liver (67.3).

Integrated Proteomics: protein expression in normal tissues and cell lines from ProteomicsDB and MOPED for CLEC4F Gene



Protein tissue co-expression partners for CLEC4F Gene

- Elite partner

NURSA nuclear receptor signaling pathways regulating expression of CLEC4F Gene:

CLEC4F

SOURCE GeneReport for Unigene cluster for CLEC4F Gene:

Hs.681239

Evidence on tissue expression from TISSUES for CLEC4F Gene

  • Eye(4.6)
genes like me logo Genes that share expression patterns with CLEC4F: view

Primer Products

No data available for mRNA Expression by UniProt/SwissProt and Phenotype-based relationships between genes and organs from Gene ORGANizer for CLEC4F Gene

Orthologs for CLEC4F Gene

This gene was present in the common ancestor of chordates.

Orthologs for CLEC4F Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia CLEC4F 34 35
  • 97.27 (n)
cow
(Bos Taurus)
Mammalia CLEC4F 34 35
  • 76.53 (n)
dog
(Canis familiaris)
Mammalia CLEC4F 34 35
  • 76.47 (n)
mouse
(Mus musculus)
Mammalia Clec4f 34 16 35
  • 69.33 (n)
rat
(Rattus norvegicus)
Mammalia Clec4f 34
  • 67.62 (n)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 35
  • 49 (a)
ManyToMany
-- 35
  • 39 (a)
ManyToMany
oppossum
(Monodelphis domestica)
Mammalia CLEC4F 35
  • 38 (a)
OneToOne
lizard
(Anolis carolinensis)
Reptilia -- 35
  • 30 (a)
ManyToMany
-- 35
  • 29 (a)
ManyToMany
-- 35
  • 24 (a)
ManyToMany
-- 35
  • 19 (a)
ManyToMany
zebrafish
(Danio rerio)
Actinopterygii CD207 35
  • 17 (a)
OneToMany
Species where no ortholog for CLEC4F was found in the sources mined by GeneCards:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • chicken (Gallus gallus)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • fruit fly (Drosophila melanogaster)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea squirt (Ciona intestinalis)
  • sea squirt (Ciona savignyi)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • tropical clawed frog (Silurana tropicalis)
  • wheat (Triticum aestivum)
  • worm (Caenorhabditis elegans)

Evolution for CLEC4F Gene

ENSEMBL:
Gene Tree for CLEC4F (if available)
TreeFam:
Gene Tree for CLEC4F (if available)

Paralogs for CLEC4F Gene

(1) SIMAP similar genes for CLEC4F Gene using alignment to 3 proteins:

genes like me logo Genes that share paralogs with CLEC4F: view

Variants for CLEC4F Gene

Sequence variations from dbSNP and Humsavar for CLEC4F Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type
rs1000251645 -- 70,813,083(+) ATCCT(A/G)TGAGC intron-variant
rs1000832503 -- 70,823,597(+) GCCTC(C/T)CCACC intron-variant, utr-variant-5-prime
rs1001022832 -- 70,818,042(+) TGATT(A/C)CAGTC intron-variant
rs1001317550 -- 70,826,465(+) TCAAT(A/C)TCTTG intron-variant, upstream-variant-2KB
rs1001687744 -- 70,815,573(+) CTTAC(A/G)TGTGT intron-variant

Structural Variations from Database of Genomic Variants (DGV) for CLEC4F Gene

Variant ID Type Subtype PubMed ID
esv2762674 CNV gain 21179565
nsv1146915 OTHER inversion 26484159
nsv458130 CNV loss 19166990
nsv582193 CNV loss 21841781
nsv961756 CNV deletion 23825009
nsv961788 CNV duplication 23825009

Variation tolerance for CLEC4F Gene

Residual Variation Intolerance Score: 98.8% of all genes are more intolerant (likely to be disease-causing)
Gene Damage Index Score: 11.56; 93.02% of all genes are more intolerant (likely to be disease-causing)

Relevant External Links for CLEC4F Gene

Human Gene Mutation Database (HGMD)
CLEC4F
SNPedia medical, phenotypic, and genealogical associations of SNPs for
CLEC4F

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for CLEC4F Gene

Disorders for CLEC4F Gene

MalaCards: The human disease database

(3) MalaCards diseases for CLEC4F Gene - From: DISEASES and GeneCards

Disorder Aliases PubMed IDs
kenny-caffey syndrome
  • kenny syndrome
kenny-caffey syndrome, type 1
  • kcs
keratoconjunctivitis sicca
  • xerophthalmia
- elite association - COSMIC cancer census association via MalaCards

Relevant External Links for CLEC4F

Atlas of Genetics and Cytogenetics in Oncology and Haematology:
CLEC4F
genes like me logo Genes that share disorders with CLEC4F: view

No data available for UniProtKB/Swiss-Prot and Genatlas for CLEC4F Gene

Publications for CLEC4F Gene

  1. Complete sequencing and characterization of 21,243 full-length human cDNAs. (PMID: 14702039) Ota T. … Sugano S. (Nat. Genet. 2004) 3 4 64
  2. Normalization and subtraction: two approaches to facilitate gene discovery. (PMID: 8889548) Bonaldo M.F. … Soares M.B. (Genome Res. 1996) 2 3 64
  3. Structure of the gene for a carbohydrate-binding receptor unique to rat kupffer cells. (PMID: 1846367) Hoyle G.W. … Hill R.L. (J. Biol. Chem. 1991) 2 3 64
  4. Genome-wide association study identifies three novel susceptibility loci for severe Acne vulgaris. (PMID: 24927181) Navarini A.A. … Barker J.N. (Nat Commun 2014) 3 64
  5. A protein-protein interaction network for human inherited ataxias and disorders of Purkinje cell degeneration. (PMID: 16713569) Lim J. … Zoghbi H.Y. (Cell 2006) 3 64

Products for CLEC4F Gene

Sources for CLEC4F Gene

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